Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002524.1 Hibiscus syriacus cultivar Beakdansim tig00005135_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 96964
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Found at i:3263 original size:21 final size:21
Alignment explanation
Indices: 3237--3277 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
3227 TCAAATATTA
3237 TTGCACCTAATTTTGACATTG
1 TTGCACCTAATTTTGACATTG
3258 TTGCACCTAATTTTGACATT
1 TTGCACCTAATTTTGACATT
3278 ACAATATTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.20, G:0.12, T:0.44
Consensus pattern (21 bp):
TTGCACCTAATTTTGACATTG
Found at i:9776 original size:6 final size:6
Alignment explanation
Indices: 9765--9821 Score: 107
Period size: 6 Copynumber: 9.7 Consensus size: 6
9755 CACTACCCCA
9765 GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC
1 GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC
9813 GACC-C GACC
1 GACCAC GACC
9822 CGAGACGGGA
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 5 0.10
6 46 0.90
ACGTcount: A:0.32, C:0.51, G:0.18, T:0.00
Consensus pattern (6 bp):
GACCAC
Found at i:10192 original size:19 final size:19
Alignment explanation
Indices: 10119--10202 Score: 80
Period size: 19 Copynumber: 4.2 Consensus size: 19
10109 TATTTTGGAT
*
10119 TTTTCACTATCGCAACAC-
1 TTTTAACTATCGCAACACA
* *
10137 TTTTCACTATCACAACAACA
1 TTTTAACTATCGCAAC-ACA
*
10157 CGTTTTCAAACTCTCGCAACACA
1 --TTTT--AACTATCGCAACACA
10180 TTTTAACTATCGCAACACA
1 TTTTAACTATCGCAACACA
10199 TTTT
1 TTTT
10203 TCAAAATCGC
Statistics
Matches: 55, Mismatches: 5, Indels: 11
0.77 0.07 0.15
Matches are distributed among these distances:
18 15 0.27
19 20 0.36
21 4 0.07
22 4 0.07
23 3 0.05
24 9 0.16
ACGTcount: A:0.32, C:0.30, G:0.05, T:0.33
Consensus pattern (19 bp):
TTTTAACTATCGCAACACA
Found at i:12543 original size:25 final size:25
Alignment explanation
Indices: 12493--12545 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
12483 ATATTGTTTC
** *
12493 CAATAAAATATAAATATTTAGTTTT
1 CAATAAAATATAAATAGGTAGATTT
12518 CAATAAAATATAAATACGGTA-ATTT
1 CAATAAAATATAAATA-GGTAGATTT
12543 CAA
1 CAA
12546 ATGTTCGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 22 0.92
26 2 0.08
ACGTcount: A:0.51, C:0.08, G:0.06, T:0.36
Consensus pattern (25 bp):
CAATAAAATATAAATAGGTAGATTT
Found at i:17369 original size:2 final size:2
Alignment explanation
Indices: 17362--17406 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
17352 AAAAGCTAGA
17362 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17404 AT A
1 AT A
17407 CGTGGACTTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:17533 original size:25 final size:24
Alignment explanation
Indices: 17476--17538 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 24
17466 TAATTTTTAA
*
17476 TAATTTTATTTTTATGATACATTT
1 TAATCTTATTTTTATGATACATTT
**
17500 TTTTC-TATTTTT-TGATACATTAT
1 TAATCTTATTTTTATGATACATT-T
17523 TAATCATTATTTTTAT
1 TAATC-TTATTTTTAT
17539 TTATCTTTTC
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
22 9 0.30
23 11 0.37
24 2 0.07
25 7 0.23
26 1 0.03
ACGTcount: A:0.27, C:0.06, G:0.03, T:0.63
Consensus pattern (24 bp):
TAATCTTATTTTTATGATACATTT
Found at i:19054 original size:17 final size:17
Alignment explanation
Indices: 19032--19078 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
19022 TTGGTTCCTG
19032 TAAAAAATATTTAAATT
1 TAAAAAATATTTAAATT
*
19049 TAAAAAATA-TAAAATT
1 TAAAAAATATTTAAATT
**
19065 TATTAAATATTTAA
1 TAAAAAATATTTAA
19079 TCAACTAGTG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
16 13 0.52
17 12 0.48
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
TAAAAAATATTTAAATT
Found at i:19063 original size:16 final size:17
Alignment explanation
Indices: 19032--19066 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
19022 TTGGTTCCTG
*
19032 TAAAAAATATTTAAATT
1 TAAAAAATATTAAAATT
19049 TAAAAAATA-TAAAATT
1 TAAAAAATATTAAAATT
19065 TA
1 TA
19067 TTAAATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
TAAAAAATATTAAAATT
Found at i:21260 original size:19 final size:19
Alignment explanation
Indices: 21232--21268 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
21222 ACATTAGTAG
*
21232 TGCATGTTCTAGAATGCAC
1 TGCATATTCTAGAATGCAC
21251 TGCATATTCTAGAATGCA
1 TGCATATTCTAGAATGCA
21269 TATTCCAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (19 bp):
TGCATATTCTAGAATGCAC
Found at i:21389 original size:36 final size:36
Alignment explanation
Indices: 21342--21478 Score: 202
Period size: 36 Copynumber: 3.8 Consensus size: 36
21332 TCGGAAGGGT
* *
21342 CGATGCTTCCTTCCGTTCGACTTGAATCAGAATTGC
1 CGATGCTTCCTTCCGTTCGATTTGAATCAGAAGTGC
*
21378 CGATGCTTCCTTCCGTTCGATTTGAATCGGAAGTGC
1 CGATGCTTCCTTCCGTTCGATTTGAATCAGAAGTGC
* * *
21414 CAATGCTTCCTTCCATTCGATTTGAATCGGAAGTGC
1 CGATGCTTCCTTCCGTTCGATTTGAATCAGAAGTGC
* *
21450 CGATGCTTCATTCCGTTCTATTTGAATCA
1 CGATGCTTCCTTCCGTTCGATTTGAATCA
21479 TCGGTGCACC
Statistics
Matches: 91, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 91 1.00
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.35
Consensus pattern (36 bp):
CGATGCTTCCTTCCGTTCGATTTGAATCAGAAGTGC
Found at i:22541 original size:19 final size:19
Alignment explanation
Indices: 22513--22549 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
22503 ACATTAGCAG
*
22513 TGCATGTTCTAGAATGCAC
1 TGCATATTCTAGAATGCAC
22532 TGCATATTCTAGAATGCA
1 TGCATATTCTAGAATGCA
22550 TATTCCAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (19 bp):
TGCATATTCTAGAATGCAC
Found at i:23970 original size:109 final size:109
Alignment explanation
Indices: 23841--24065 Score: 407
Period size: 109 Copynumber: 2.1 Consensus size: 109
23831 AAGCGATACC
* *
23841 ATTAAT-TAATTAATTATTGAAGCCCGGTTGGCCTAATTTTGGAAACAGAATCTACCGGCTCTTC
1 ATTAATCTAATTAATTATTGAAGCCCGGTTGGCCTAATTTTGGAAACAAAATCTACCGACTCTTC
*
23905 CATGTTACGCATCACATAAGAATAAAGAAACTTTAATTCAAAAA
66 CATGTTACGCATCACAGAAGAATAAAGAAACTTTAATTCAAAAA
*
23949 ATTAATCTAATTAATTATTGAAGCCTGGTTGGCCTAATTTTGGAAACAAAATCTACCGACTCTTC
1 ATTAATCTAATTAATTATTGAAGCCCGGTTGGCCTAATTTTGGAAACAAAATCTACCGACTCTTC
24014 CATGTTACGCATCACAGAAGAATAAAGAAACTTTAATTCAAAAA
66 CATGTTACGCATCACAGAAGAATAAAGAAACTTTAATTCAAAAA
24058 ATTAATCT
1 ATTAATCT
24066 TTTGAAGACG
Statistics
Matches: 112, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
108 6 0.05
109 106 0.95
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (109 bp):
ATTAATCTAATTAATTATTGAAGCCCGGTTGGCCTAATTTTGGAAACAAAATCTACCGACTCTTC
CATGTTACGCATCACAGAAGAATAAAGAAACTTTAATTCAAAAA
Found at i:35697 original size:34 final size:31
Alignment explanation
Indices: 35645--35713 Score: 102
Period size: 34 Copynumber: 2.1 Consensus size: 31
35635 CCTTACAAAC
35645 TCCCTAGTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTCCGGGCTAAACTAGAACCTT
*
35676 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAG-TTTT-C-CGGGCTAAACTAGAACCTT
35710 TCCC
1 TCCC
35714 CTTTACAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
31 7 0.21
32 4 0.12
33 1 0.03
34 22 0.65
ACGTcount: A:0.22, C:0.32, G:0.16, T:0.30
Consensus pattern (31 bp):
TCCCTAGTTTTCCGGGCTAAACTAGAACCTT
Found at i:36022 original size:21 final size:21
Alignment explanation
Indices: 35996--36035 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
35986 CCAGAATGGG
*
35996 GGGAATCGGTACCCCTTCACA
1 GGGAATCGATACCCCTTCACA
36017 GGGAATCGATACCCCTTCA
1 GGGAATCGATACCCCTTCA
36036 TAATATTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.25, C:0.33, G:0.23, T:0.20
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCACA
Found at i:36265 original size:30 final size:31
Alignment explanation
Indices: 36218--36308 Score: 168
Period size: 31 Copynumber: 3.0 Consensus size: 31
36208 AAATTTTGAA
36218 TAAATTCAATT-AAGTCCAAAAA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
36247 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
36278 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
36309 CCTTAAATTG
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
29 11 0.18
30 11 0.18
31 38 0.63
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.33
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:38700 original size:2 final size:2
Alignment explanation
Indices: 38695--38729 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
38685 TATTTTTTTA
38695 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
38730 ATAGATTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:45242 original size:24 final size:25
Alignment explanation
Indices: 45213--45268 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
45203 TTTCTCGGGA
45213 TCGGGTCGGGTTC-GGTACAATACT
1 TCGGGTCGGGTTCGGGTACAATACT
*
45237 TTGGGTCGGGTTCGGGTACAATACT
1 TCGGGTCGGGTTCGGGTACAATACT
45262 TCGGGTC
1 TCGGGTC
45269 AGTTTTAGAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 12 0.41
25 17 0.59
ACGTcount: A:0.14, C:0.20, G:0.36, T:0.30
Consensus pattern (25 bp):
TCGGGTCGGGTTCGGGTACAATACT
Found at i:45685 original size:17 final size:17
Alignment explanation
Indices: 45663--45696 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
45653 TACCTTGCTT
45663 ATGCCTCTTATAGTCGG
1 ATGCCTCTTATAGTCGG
*
45680 ATGCCTTTTATAGTCGG
1 ATGCCTCTTATAGTCGG
45697 TTGTCTCGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.38
Consensus pattern (17 bp):
ATGCCTCTTATAGTCGG
Found at i:46377 original size:151 final size:151
Alignment explanation
Indices: 46103--46402 Score: 557
Period size: 151 Copynumber: 2.0 Consensus size: 151
46093 CTTCACACCA
*
46103 ACTTGTTCAGCCAAGGAAAGGGCAATAAAGAATAACAGTTCTATCTCTGATTTGATCCAACAACG
1 ACTTGTTCAGCCAAGGAAAGGGCAATAAAGAACAACAGTTCTATCTCTGATTTGATCCAACAACG
*
46168 GGTTTCCATACTTCTTCCATCCTCTGGAATACCCAACGCATCATCTTCTCTGTGGATGGTACACC
66 GGTTTCCATACTTCTTACATCCTCTGGAATACCCAACGCATCATCTTCTCTGTGGATGGTACACC
46233 CATCAGAGAGTTCAAAAACCG
131 CATCAGAGAGTTCAAAAACCG
*
46254 ACTTGTTCAGCCAAGGAAAGGGCAATAAAGAACAACAGTTCTATCTCTGGTTTGATCCAACAACG
1 ACTTGTTCAGCCAAGGAAAGGGCAATAAAGAACAACAGTTCTATCTCTGATTTGATCCAACAACG
46319 GGTTTCCATACTTAC-TACATCCTCTGGAATACCCAACGCATCATCTTCTCTGTGGATGGTACAC
66 GGTTTCCATACTT-CTTACATCCTCTGGAATACCCAACGCATCATCTTCTCTGTGGATGGTACAC
46383 CCATCAGAGAGTTCAAAAAC
130 CCATCAGAGAGTTCAAAAAC
46403 ATGGAATCAA
Statistics
Matches: 145, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
151 144 0.99
152 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (151 bp):
ACTTGTTCAGCCAAGGAAAGGGCAATAAAGAACAACAGTTCTATCTCTGATTTGATCCAACAACG
GGTTTCCATACTTCTTACATCCTCTGGAATACCCAACGCATCATCTTCTCTGTGGATGGTACACC
CATCAGAGAGTTCAAAAACCG
Found at i:50160 original size:45 final size:45
Alignment explanation
Indices: 50096--50185 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
50086 TTTGGTAAAC
50096 GTAGCACCTTTGCAGCAAGAAGGCAATAAAACTAGTATGAGTACT
1 GTAGCACCTTTGCAGCAAGAAGGCAATAAAACTAGTATGAGTACT
50141 GTAGCACCTTTGCAGCAAGAAGGCAATAAAACTAGTATGAGTACT
1 GTAGCACCTTTGCAGCAAGAAGGCAATAAAACTAGTATGAGTACT
50186 TAGGATTGCT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.22
Consensus pattern (45 bp):
GTAGCACCTTTGCAGCAAGAAGGCAATAAAACTAGTATGAGTACT
Found at i:55362 original size:15 final size:15
Alignment explanation
Indices: 55342--55372 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
55332 CTTGAGTTTG
55342 AGCTTTACTTAGGGT
1 AGCTTTACTTAGGGT
*
55357 AGCTTTACTTTGGGT
1 AGCTTTACTTAGGGT
55372 A
1 A
55373 TGGTCTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.13, G:0.26, T:0.42
Consensus pattern (15 bp):
AGCTTTACTTAGGGT
Found at i:57285 original size:32 final size:31
Alignment explanation
Indices: 57236--57346 Score: 115
Period size: 32 Copynumber: 3.7 Consensus size: 31
57226 AGTTAGACAA
*
57236 TATTTGACTCGTGCTCGTTAAAAAAATTTGT
1 TATTCGACTCGTGCTCGTTAAAAAAATTTGT
*
57267 TATTCGACTCGTTGCTCGTT--AAAATTTTGT
1 TATTCGACTCG-TGCTCGTTAAAAAAATTTGT
*
57297 T-TT--ACTCGTGCTCATTAAAAAAATTTGT
1 TATTCGACTCGTGCTCGTTAAAAAAATTTGT
** *
57325 TGCTCGACTTGGTGCTCGTTAA
1 TATTCGAC-TCGTGCTCGTTAA
57347 GCTAGTTAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 13
0.77 0.08 0.15
Matches are distributed among these distances:
26 7 0.11
27 5 0.08
28 10 0.15
29 3 0.05
30 10 0.15
31 12 0.18
32 19 0.29
ACGTcount: A:0.24, C:0.16, G:0.17, T:0.42
Consensus pattern (31 bp):
TATTCGACTCGTGCTCGTTAAAAAAATTTGT
Found at i:57899 original size:58 final size:58
Alignment explanation
Indices: 57809--57924 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
57799 CTAGCGGTGT
57809 TTATAGTCTGCAAGAGAGAAAGGTGAATTACGGGATGTCATCCTGTCCGAGTTTGCAC
1 TTATAGTCTGCAAGAGAGAAAGGTGAATTACGGGATGTCATCCTGTCCGAGTTTGCAC
57867 TTATAGTCTGCAAGAGAGAAAGGTGAATTACGGGATGTCATCCTGTCCGAGTTTGCAC
1 TTATAGTCTGCAAGAGAGAAAGGTGAATTACGGGATGTCATCCTGTCCGAGTTTGCAC
57925 ATCATTCGAT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (58 bp):
TTATAGTCTGCAAGAGAGAAAGGTGAATTACGGGATGTCATCCTGTCCGAGTTTGCAC
Found at i:58688 original size:16 final size:17
Alignment explanation
Indices: 58648--58691 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
58638 CCCTACTTGA
58648 TTAAATATTTAATAAAT
1 TTAAATATTTAATAAAT
** *
58665 TTTTATATTT-TTAAAT
1 TTAAATATTTAATAAAT
58681 TTAAATATTTA
1 TTAAATATTTA
58692 TTTTTTCATG
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTAAATATTTAATAAAT
Found at i:63110 original size:2 final size:2
Alignment explanation
Indices: 63105--63132 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
63095 ATAAAATTAA
63105 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
63133 TTTAAAAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:64960 original size:49 final size:51
Alignment explanation
Indices: 64906--65013 Score: 127
Period size: 52 Copynumber: 2.1 Consensus size: 51
64896 GTTTTAGTTA
64906 TATTTTTC-TATTT-TTTTAGTTT-TTTTTATTTCTTA-CTA-TTATATTATAT
1 TATTTTTCTTATTTATTTTAGTTTATTTTTA-TTCTTATCTATTTAT-TTAT-T
* *
64955 TATTTTTCTTATTTATTTTATTTTCATTTTTATTCTTATGTATTTATTTATT
1 TATTTTTCTTATTTATTTTAGTTT-ATTTTTATTCTTATCTATTTATTTATT
65007 TATTTTT
1 TATTTTT
65014 TAACTAACCT
Statistics
Matches: 51, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
49 8 0.16
50 5 0.10
51 8 0.16
52 14 0.27
53 12 0.24
54 4 0.08
ACGTcount: A:0.19, C:0.06, G:0.02, T:0.73
Consensus pattern (51 bp):
TATTTTTCTTATTTATTTTAGTTTATTTTTATTCTTATCTATTTATTTATT
Found at i:64970 original size:23 final size:26
Alignment explanation
Indices: 64934--64985 Score: 65
Period size: 23 Copynumber: 2.1 Consensus size: 26
64924 GTTTTTTTTA
64934 TTTCTTACTATTATATTATATT-ATT
1 TTTCTTACTATTATATTATATTCATT
* *
64959 TTTCTTA-T-TTATTTTATTTTCATT
1 TTTCTTACTATTATATTATATTCATT
64983 TTT
1 TTT
64986 ATTCTTATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 10 0.42
24 7 0.29
25 7 0.29
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.71
Consensus pattern (26 bp):
TTTCTTACTATTATATTATATTCATT
Found at i:65058 original size:17 final size:17
Alignment explanation
Indices: 65031--65071 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
65021 CCTTTTTATA
65031 TATTA-TTATTATTTTAC
1 TATTATTTATTATTTT-C
65048 T-TTATTTATTATTTTC
1 TATTATTTATTATTTTC
65064 TATTATTT
1 TATTATTT
65072 TTTTACTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (17 bp):
TATTATTTATTATTTTC
Found at i:66250 original size:15 final size:15
Alignment explanation
Indices: 66230--66269 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
66220 TCTTTTTATT
66230 TTTTGTTTTCCTTTA
1 TTTTGTTTTCCTTTA
66245 TTTTGTTTTCCTTTA
1 TTTTGTTTTCCTTTA
66260 TTTTGTTTTC
1 TTTTGTTTTC
66270 ATCATTTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.05, C:0.12, G:0.07, T:0.75
Consensus pattern (15 bp):
TTTTGTTTTCCTTTA
Found at i:70908 original size:249 final size:249
Alignment explanation
Indices: 70444--71287 Score: 1309
Period size: 249 Copynumber: 3.4 Consensus size: 249
70434 ATCATAACTC
* *
70444 AAGGGTTGTCTGTCAGCC-AAA-ACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATGTCATTT
1 AAGGGTTATCTGTCA-CCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTT
* * * *
70507 GCAGCATAACTTAAATCGAGAAGGGTTATCTGCCAACAAAAGACCATCGAGTTTGACTACGCTCG
65 GCAGCATAACTTAAATCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCA
* * * * *
70572 GCTCCAAGGCGCATCATTTGCAGCATAGCTTAAGTCGAGAAGAGTTATTTGCCAAAGATCCTCAA
130 GCTCCAAAGCGCATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCAA
* * **
70637 GTTCGATTACACTCAACTTCGAGGGCATATCATTTACAACATAACTCAAGGCTAG
195 GTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGTATAACTCAAGGCTAG
*
70692 AAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCATATCATTTG
1 AAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTG
*
70757 CAGCATAACTTAAATCGAGAAGGGTTATCTTCCAACCAAAGACCTTCGAGTTCGACTACGCTCAG
66 CAGCATAACTTAAATCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAG
*
70822 CTCCAAAGCGCATCATTTGCAACATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCAAG
131 CTCCAAAGCGCATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCAAG
70887 TTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGTATAACTCAAGGCTAG
196 TTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGTATAACTCAAGGCTAG
* * *
70941 AAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTAAGCTCCAAGACATATCATTTG
1 AAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTG
* *
71006 CAGCATAACTTAAACCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAA
66 CAGCATAACTTAAATCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAG
* * * * * *
71071 CTCCAATGTGCATAATTTGTAGGATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAG
131 CTCCAAAGCGCATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCAAG
* *
71136 TTTGATTACACTTAGCTTCGAGGGCACATCATTTACAGTATAACTCAAGGCTAG
196 TTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGTATAACTCAAGGCTAG
* * *
71190 AAGGGTTATCTGTCACTAAAAGACCTTCGAGTTCGACTATGCTCAGCTCTAAGGCATATCATTTG
1 AAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTG
* * * *
71255 CAGC--AGCTTAAGTCAAGAAGGGCTATCTGCCAA
66 CAGCATAACTTAAATCGAGAAGGGTTATCTGCCAA
71288 AGACTCTCGA
Statistics
Matches: 549, Mismatches: 45, Indels: 5
0.92 0.08 0.01
Matches are distributed among these distances:
247 26 0.05
248 17 0.03
249 506 0.92
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (249 bp):
AAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTG
CAGCATAACTTAAATCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAG
CTCCAAAGCGCATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCAAG
TTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGTATAACTCAAGGCTAG
Found at i:70920 original size:165 final size:162
Alignment explanation
Indices: 70460--71451 Score: 750
Period size: 165 Copynumber: 6.0 Consensus size: 162
70450 TGTCTGTCAG
*
70460 CCAAA-ACCTTCGAGTTCGACTACGCTCAGCTCCAAG-GCATGTCATTTGCAGCATAACTTAAAT
1 CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGCGCA--TCATTTGCAACATAACTTAAAT
* * * *
70523 CGAGAAGGGTTATCTGCCAACAAAAGACCATCGAGTTTGACTACGCTCGGCTCCAAGGCGCATCA
64 CGAGAAGGGTTATCTGCC--CAAAAGACCATCGAGTTCGACTACACTCAGCTCCAAGGCACATCA
* * *
70588 TTTGCAGCATAGCTTAAGTCGAGAAGAGTTAT-TTG
127 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTTA
* * * * * * * * * *
70623 CCAAAGATCC-TCAAGTTCGATTACACTCAACTTCGAGGGCATATCATTTACAACATAACTCAAG
1 CCAAAGA-CCTTCGAGTTCGACTACGCTCAGCTCCAAGCGC--ATCATTTGCAACATAACTTAAA
* * * *
70687 GCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCATATC
63 TCGAGAAGGGTTATCTG-C-CCAAAAGACCATCGAGTTCGACTACACTCAGCTCCAAGGCACATC
*
70752 ATTTGCAGCATAACTTAAATCGAGAAGGGTTATCTTCCAA
126 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTT---A
* *
70792 CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAAGCGCATCATTTGCAACATAGCTTAAGTC
1 CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCC-AAGCGCATCATTTGCAACATAACTTAAATC
* * * * * *
70857 GAGAAGGGCTATCTG-CC-AAAGACCCTCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATT
65 GAGAAGGGTTATCTGCCCAAAAGACCATCGAGTTCGACTACACTCAGC-TCCAAGGCACATCATT
* * * * *
70920 TACAGTATAACTCAAGGCTAGAAGGGTTATCTGTGA
129 TGCAGCATAACTTAAGTCGAGAAGGGTTATCT-T-A
* ** * *
70956 CCAAAAGACCTTCGAGTTCGACTACGCTAAGCTCCAAGACATATCATTTGCAGCATAACTTAAAC
1 CC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAG-CGCATCATTTGCAACATAACTTAAAT
* * * * * ** *
71021 CGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAACTCCAATGTGCATAA
64 CGAGAAGGGTTATCTGCC--CAAAAGACCATCGAGTTCGACTACACTCAGCTCCAAGGCACATCA
* * * * *
71086 TTTGTAGGATAGCTTAAGTCGAGAAGGGCTATC-TG
127 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTTA
* * * * * * * * * ** * **
71121 CCAAAGACCCTCGAGTTTGATTACACTTAGCTTCGAGGGCACATCATTTACAGTATAACTCAAGG
1 CCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCA-AGCGCATCATTTGCAACATAACTTAAAT
* * * ** * *
71186 CTAGAAGGGTTATCTGTCACTAAAAGACCTTCGAGTTCGACTATGCTCAGCTCTAAGGCATATCA
64 CGAGAAGGGTTATCTG-C-CCAAAAGACCATCGAGTTCGACTACACTCAGCTCCAAGGCACATCA
* * * *
71251 TTTGCAGC--AGCTTAAGTCAAGAAGGGCTATC-TG
127 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTTA
* ** * * * * * * *
71284 CCAAAGA-CTCTCGAGTTCGATTATACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAG
1 CCAAAGACCT-TCGAGTTCGACTACGCTCAGC-TCCA-AGCGCATCATTTGCAACATAACTTAAA
* * * * ** *
71348 GCTAGAAGAGTTATCTGTCACC-AAAGACCTTCGAGTTCGACTATGCTCAGCTCCAAGGTACATC
63 TCGAGAAGGGTTATCTG-C-CCAAAAGACCATCGAGTTCGACTACACTCAGCTCCAAGGCACATC
* *
71412 ATTTGCAGTATAGCTTAAGTCGAGAAGGGTTATC-TA
126 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTTA
71448 CCAA
1 CCAA
71452 CCGAAGACCT
Statistics
Matches: 684, Mismatches: 117, Indels: 55
0.80 0.14 0.06
Matches are distributed among these distances:
162 48 0.07
163 106 0.15
164 104 0.15
165 292 0.43
166 8 0.01
167 3 0.00
168 69 0.10
169 50 0.07
170 4 0.01
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (162 bp):
CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGCGCATCATTTGCAACATAACTTAAATCG
AGAAGGGTTATCTGCCCAAAAGACCATCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTG
CAGCATAACTTAAGTCGAGAAGGGTTATCTTA
Found at i:71459 original size:84 final size:82
Alignment explanation
Indices: 70461--71469 Score: 876
Period size: 84 Copynumber: 12.2 Consensus size: 82
70451 GTCTGTCAGC
** *
70461 CAAA-ACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATGTCATTTGCAGCATAACTTAAATCG
1 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCG
70525 AGAAGGGTTATCTGCCAA
66 AGAAGGGTTATCTGCC-A
* * * * *
70543 CAAAAGACCATCGAGTTTGACTACGCTCGGCTCCAAGGCGCATCATTTGCAGCATAGCTTAAGTC
1 C-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTC
* *
70608 GAGAAGAGTTATTTG-C-
65 GAGAAGGGTTATCTGCCA
* * * * * * * * * * *
70624 CAAAGATCC-TCAAGTTCGATTACACTCAACTTCGAGGGCATATCATTTACAACATAACTCAAGG
1 CAAAGA-CCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGT
* *
70688 CTAGAAGGGTTATCTGTCA
64 CGAGAAGGGTTATCTGCCA
* * *
70707 CCAAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAAT
1 -C-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGT
*
70772 CGAGAAGGGTTATCTTCCAA
64 CGAGAAGGGTTATCTGCC-A
* * * *
70792 CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAAGCGCATCATTTGCAACATAGCTTAAGTC
1 -CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTC
*
70857 GAGAAGGGCTATCTG-C-
65 GAGAAGGGTTATCTGCCA
* * * * * * * * * *
70873 CAAAGACCCTCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGTATAACTCAAGGC
1 CAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGTC
*
70938 TAGAAGGGTTATCTGTGACCA
65 GAGAAGGGTTATC--TG-CCA
* * * **
70959 -AAAGACCTTCGAGTTCGACTACGCTAAGCTCCAAGACATATCATTTGCAGCATAACTTAAACCG
1 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCG
71023 AGAAGGGTTATCTGCCAA
66 AGAAGGGTTATCTGCC-A
* * ** * * * *
71041 CCAAAGACCTTCGAGTTCGACTACGCTCAACTCCAATGTGCATAATTTGTAGGATAGCTTAAGTC
1 -CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTC
*
71106 GAGAAGGGCTATCTG-C-
65 GAGAAGGGTTATCTGCCA
* * * * * * * * * * *
71122 CAAAGACCCTCGAGTTTGATTACACTTAGCTTCGAGGGCACATCATTTACAGTATAACTCAAGGC
1 CAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGTC
* *
71187 TAGAAGGGTTATCTGTCA
65 GAGAAGGGTTATCTGCCA
* * * *
71205 CTAAAAGACCTTCGAGTTCGACTATGCTCAGCTCTAAGGCATATCATTTGCAGC--AGCTTAAGT
1 C--AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGT
* *
71268 CAAGAAGGGCTATCTG-C-
64 CGAGAAGGGTTATCTGCCA
* ** * * * * *
71285 CAAAGA-CTCTCGAGTTCGATTATACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGG
1 CAAAGACCT-TCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGT
* * *
71349 CTAGAAGAGTTATCTGTCA
64 CGAGAAGGGTTATCTGCCA
* * * *
71368 CCAAAGACCTTCGAGTTCGACTATGCTCAGCTCCAAGGTACATCATTTGCAGTATAGCTTAAGTC
1 -CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTC
*
71433 GAGAAGGGTTATCTACCAA
65 GAGAAGGGTTATCTGCC-A
* *
71452 CCGAAGACCTCCGAGTTC
1 -CAAAGACCTTCGAGTTC
71470 TATTGCATTC
Statistics
Matches: 735, Mismatches: 159, Indels: 64
0.77 0.17 0.07
Matches are distributed among these distances:
77 2 0.00
78 24 0.03
79 18 0.02
80 71 0.10
81 132 0.18
82 27 0.04
83 48 0.07
84 337 0.46
85 76 0.10
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (82 bp):
CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCG
AGAAGGGTTATCTGCCA
Found at i:73252 original size:16 final size:17
Alignment explanation
Indices: 73226--73274 Score: 61
Period size: 16 Copynumber: 3.1 Consensus size: 17
73216 CCTTTTTATA
73226 TATTA-TTATTATTTAC
1 TATTATTTATTATTTAC
*
73242 T-TTATTTATTATTTTC
1 TATTATTTATTATTTAC
73258 TATTATTT-TT-TTTAC
1 TATTATTTATTATTTAC
73273 TA
1 TA
73275 ACTGTTGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
15 9 0.31
16 14 0.48
17 6 0.21
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.69
Consensus pattern (17 bp):
TATTATTTATTATTTAC
Found at i:73335 original size:2 final size:2
Alignment explanation
Indices: 73312--73353 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
73302 TGTTTTATTA
* * *
73312 AT AT AT TT AT AT CT AT AG AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
73354 TTCCCTTTGC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:73469 original size:6 final size:6
Alignment explanation
Indices: 73458--73486 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
73448 CGAATCGGGT
73458 AATTTA AATTTA AATTTA AATTTA AATTT
1 AATTTA AATTTA AATTTA AATTTA AATTT
73487 TCAACTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
AATTTA
Found at i:76523 original size:116 final size:116
Alignment explanation
Indices: 76386--76612 Score: 257
Period size: 116 Copynumber: 2.0 Consensus size: 116
76376 AACTGAAACT
* ** * * *
76386 ATTTTATAAAATCTAAAT-AAAATTAGGAGCCTTCAATTATAAAAGTAGAAAGTGATGACTATTT
1 ATTTTATAAAATCTAAATAAAAATAAAAACCCTT-AATAATAAAAGTAGAAAGTGAGGACTA-TT
* ** *
76450 TATAAAGTT-AAA-AAATTTAGAGGCCCTTAATAATTAGGGTAGAAAGTGAGGATA
64 TATAAAATTGAAAGAAAAAT-GA--CCCTTAATAATTAAGGTAGAAAGTGAGGATA
* * *
76504 ATTTTATAAAAT-T-GATAAAAATAAAAACCCTTAATAATTAAGGTAGAAAGTGAGGACTATTTA
1 ATTTTATAAAATCTAAATAAAAATAAAAACCCTTAATAATAAAAGTAGAAAGTGAGGACTATTTA
76567 TAAAATTGAAAGAAAAATGACCCTTAATAATTAAGGTAGAAAGTGA
66 TAAAATTGAAAGAAAAATGACCCTTAATAATTAAGGTAGAAAGTGA
76613 TCCAATTAGT
Statistics
Matches: 93, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
114 25 0.27
115 10 0.11
116 30 0.32
117 16 0.17
118 12 0.13
ACGTcount: A:0.48, C:0.07, G:0.16, T:0.30
Consensus pattern (116 bp):
ATTTTATAAAATCTAAATAAAAATAAAAACCCTTAATAATAAAAGTAGAAAGTGAGGACTATTTA
TAAAATTGAAAGAAAAATGACCCTTAATAATTAAGGTAGAAAGTGAGGATA
Found at i:76601 original size:56 final size:56
Alignment explanation
Indices: 76368--76612 Score: 221
Period size: 58 Copynumber: 4.2 Consensus size: 56
76358 CTCAGTTATA
* * * * * *
76368 AAGGTAGAAACTGA-AACTATTTTATAAAATCT-AAATAAAATTAGGAGCCTTCAATTATA
1 AAGGTAGAAAGTGAGGACTATTTTATAAAAT-TGAAA-AAAA--ATGACCCTT-AATAATT
* * * **
76427 AAAGTAGAAAGTGATGACTATTTTATAAAGTT-AAAAAATTTAGAGGCCCTTAATAATT
1 AAGGTAGAAAGTGAGGACTATTTTATAAAATTGAAAAAAAAT-GA--CCCTTAATAATT
* **
76485 AGGGTAGAAAGTGAGGA-TAATTTTATAAAATTGATAAAAATAAAAACCCTTAATAATT
1 AAGGTAGAAAGTGAGGACT-ATTTTATAAAATTGA-AAAAA-AATGACCCTTAATAATT
76543 AAGGTAGAAAGTGAGGACTA-TTTATAAAATTGAAAGAAAAATGACCCTTAATAATT
1 AAGGTAGAAAGTGAGGACTATTTTATAAAATTGAAA-AAAAATGACCCTTAATAATT
76599 AAGGTAGAAAGTGA
1 AAGGTAGAAAGTGA
76613 TCCAATTAGT
Statistics
Matches: 155, Mismatches: 21, Indels: 23
0.78 0.11 0.12
Matches are distributed among these distances:
56 31 0.20
57 19 0.12
58 63 0.41
59 22 0.14
60 20 0.13
ACGTcount: A:0.48, C:0.07, G:0.16, T:0.29
Consensus pattern (56 bp):
AAGGTAGAAAGTGAGGACTATTTTATAAAATTGAAAAAAAATGACCCTTAATAATT
Found at i:90867 original size:20 final size:20
Alignment explanation
Indices: 90842--90879 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
90832 CACATGTTAA
90842 AGAATGCATCGATGCACTAT
1 AGAATGCATCGATGCACTAT
*
90862 AGAATGTATCGATGCACT
1 AGAATGCATCGATGCACT
90880 TCAAGGGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.26
Consensus pattern (20 bp):
AGAATGCATCGATGCACTAT
Found at i:92478 original size:23 final size:23
Alignment explanation
Indices: 92427--92488 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
92417 GATATTTTAT
*
92427 ATGGCACTTCGGTGCAATTCTAT
1 ATGGCACTTCGGTGCAATTCTAC
** *
92450 GCGGCACTTCGGTGCACTTCTAC
1 ATGGCACTTCGGTGCAATTCTAC
*
92473 ATGGCACTTTGGTGCA
1 ATGGCACTTCGGTGCA
92489 TTTATACGAG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.18, C:0.26, G:0.26, T:0.31
Consensus pattern (23 bp):
ATGGCACTTCGGTGCAATTCTAC
Found at i:93846 original size:3 final size:3
Alignment explanation
Indices: 93840--93866 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
93830 ACATATTATT
93840 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
93867 AAATCAATGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Done.